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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Nagarajan, R."

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Search Summary

This query matches 21 Structures.

Refinements

Structure Determination Methodology

experimental (21)

Scientific Name of Source Organism

	Homo sapiens (7)
	Bradyrhizobium japonicum (5)
	Streptomyces sp. R61 (5)
	Enterococcus faecium DO (1)
	Human immunodeficiency virus 1 (1)
	Mesorhizobium sp. ORS 3359 (1)
	Rhodopseudomonas palustris (1)
	Streptococcus agalactiae NEM316 (1)

Taxonomy

	Bacteria (14)
	Eukaryota (7)
	Riboviria (1)

Experimental Method

X-RAY DIFFRACTION (21)

Polymer Entity Type

Protein (21)

Refinement Resolution (Å)

	1.0 - 1.5 (7)
	1.5 - 2.0 (8)
	2.0 - 2.5 (4)
	2.5 - 3.0 (1)
	3.0 - 3.5 (1)

Release Date

	2000 - 2004 (5)
	2015 - 2019 (10)
	2020 - 2024 (6)

Enzyme Classification Name

	Transferases (7)
	Hydrolases (5)
	Oxidoreductases (1)

Symmetry Type

	Asymmetric (19)
	Cyclic (1)
	Dihedral (1)

SCOP Classification

	Multi-domain proteins (alpha and beta) (5)
	Alpha and beta proteins (a/b) (1)

AllSelected

1 to 21 of 21 Structures

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1PW1 \| pdb_00001pw1	Download File View File

Non-Covalent Complex Of Streptomyces R61 DD-Peptidase With A Highly Specific Penicillin

Silvaggi, N.R., Josephine, H.R., Pratt, R.F., Kelly, J.A.

(2005) J Mol Biology 345: 521-533

Released	2004-07-13
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Streptomyces sp. R61
Macromolecule	D-alanyl-D-alanine carboxypeptidase (protein)
Unique Ligands	FOR, GOL, HEL

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1PW8 \| pdb_00001pw8	Download File View File

Covalent Acyl Enzyme Complex Of The R61 DD-Peptidase with A Highly Specific Cephalosporin

Silvaggi, N.R., Josephine, H.R., Pratt, R.F., Kelly, J.A.

(2005) J Mol Biology 345: 521-533

Released	2004-07-13
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Streptomyces sp. R61
Macromolecule	D-alanyl-D-alanine carboxypeptidase (protein)
Unique Ligands	GOL, H2A

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1PWC \| pdb_00001pwc	Download File View File

penicilloyl acyl enzyme complex of the Streptomyces R61 DD-peptidase with penicillin G

Silvaggi, N.R., Josephine, H.R., Pratt, R.F., Kelly, J.A.

(2005) J Mol Biology 345: 521-533

Released	2004-07-13
Method	X-RAY DIFFRACTION 1.1 Å
Organisms	Streptomyces sp. R61
Macromolecule	D-alanyl-D-alanine carboxypeptidase (protein)
Unique Ligands	PNM

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1PWD \| pdb_00001pwd	Download File View File

Covalent acyl enzyme complex of the Streptomyces R61 DD-peptidase with cephalosporin C

Silvaggi, N.R., Josephine, H.R., Pratt, R.F., Kelly, J.A.

(2005) J Mol Biology 345: 521-533

Released	2004-07-13
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Streptomyces sp. R61
Macromolecule	D-alanyl-D-alanine carboxypeptidase precursor (protein)
Unique Ligands	0MU

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1PWG \| pdb_00001pwg	Download File View File

Covalent Penicilloyl Acyl Enzyme Complex Of The Streptomyces R61 DD-Peptidase With A Highly Specific Penicillin

Silvaggi, N.R., Josephine, H.R., Pratt, R.F., Kelly, J.A.

(2005) J Mol Biology 345: 521-533

Released	2004-07-13
Method	X-RAY DIFFRACTION 1.074 Å
Organisms	Streptomyces sp. R61
Macromolecule	D-alanyl-D-alanine carboxypeptidase (protein)
Unique Ligands	HE0

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5EWI \| pdb_00005ewi	Download File View File

Crystal Structure of the Human Fab VRC38.01, an HIV-1 V1V2-Directed Neutralizing Antibody Isolated from Donor N90

Gorman, J., Kwong, P.D.

(2017) Immunity 46: 777-791.e10

Released	2016-11-23
Method	X-RAY DIFFRACTION 1.5996 Å
Organisms	Homo sapiens
Macromolecule	VRC38.01 Heavy Chain (protein) VRC38.01 Light Chain (protein)

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5FCE \| pdb_00005fce	Download File View File

The crystal structure of the ligand binding region of Serine-glutamate repeat protein A (SgrA) of Enterococcus faecium

Ponnuraj, K., Nagarajan, R.

(2016) FEBS J 283: 3039-3055

Released	2016-07-06
Method	X-RAY DIFFRACTION 1.798 Å
Organisms	Enterococcus faecium DO
Macromolecule	LPXTG family cell surface protein Fms2 (protein)

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5VGJ \| pdb_00005vgj	Download File View File

Crystal Structure of the Human Fab VRC38.01, an HIV-1 V1V2-Directed Neutralizing Antibody Isolated from Donor N90, bound to a scaffolded WITO V1V2 domain

Gorman, J., Li, J., Kwong, P.D.

(2017) Immunity 46: 777-791.e10

Released	2017-05-31
Method	X-RAY DIFFRACTION 3.456 Å
Organisms	Homo sapiens Human immunodeficiency virus 1
Macromolecule	1FD6-V1V2-WITO (protein) VRC38.01 Fab Heavy Chain (protein) VRC38.01 Fab Light Chain (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, MAN, NAG

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5W8A \| pdb_00005w8a	Download File View File

The structure of a COA-dependent acyl-homoserine lactone synthase, BjaI, with SAM and isopentyl-CoA

Dong, S.-H., Nair, S.K.

(2017) Proc Natl Acad Sci U S A 114: 9092-9097

Released	2017-08-23
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bradyrhizobium japonicum
Macromolecule	Autoinducer synthase (protein)
Unique Ligands	A1S, SAM

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5W8C \| pdb_00005w8c	Download File View File

The structure of a COA-dependent acyl-homoserine lactone synthase, BjaI, with MTA and isovaleryl-CoA

Dong, S.-H., Nair, S.K.

(2017) Proc Natl Acad Sci U S A 114: 9092-9097

Released	2017-08-23
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Bradyrhizobium japonicum
Macromolecule	Autoinducer synthase (protein)
Unique Ligands	CL, GOL, IVC, MTA

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5W8D \| pdb_00005w8d	Download File View File

The structure of a COA-dependent acyl-homoserine lactone synthase, BjaI, with MTA

Dong, S.-H., Nair, S.K.

(2017) Proc Natl Acad Sci U S A 114: 9092-9097

Released	2017-08-23
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bradyrhizobium japonicum
Macromolecule	Autoinducer synthase (protein)
Unique Ligands	GOL, MTA

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5W8E \| pdb_00005w8e	Download File View File

The structure of a CoA-dependent acyl-homoserine lactone synthase, BjaI, with the adduct of SAH and IV-CoA

Dong, S.-H., Nair, S.K.

(2017) Proc Natl Acad Sci U S A 114: 9092-9097

Released	2017-08-23
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Bradyrhizobium japonicum
Macromolecule	Autoinducer synthase (protein)
Unique Ligands	ADE, CL, GOL, SXZ

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5W8G \| pdb_00005w8g	Download File View File

The structure of a COA-dependent acyl-homoserine lactone synthase, BjaI, with SAH

Dong, S.-H., Nair, S.K.

(2017) Proc Natl Acad Sci U S A 114: 9092-9097

Released	2017-08-23
Method	X-RAY DIFFRACTION 2 Å
Organisms	Bradyrhizobium japonicum
Macromolecule	Autoinducer synthase (protein)
Unique Ligands	SAH, SO4

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6IEP \| pdb_00006iep	Download File View File

GAPDH of Streptococcus agalactiae

Ponnuraj, K., Nagarajan, R.

(2018) Microb Pathog 127: 359-367

Released	2019-01-02
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Streptococcus agalactiae NEM316
Macromolecule	Glyceraldehyde-3-phosphate dehydrogenase (protein)

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6NT2 \| pdb_00006nt2	Download File View File

type 1 PRMT in complex with the inhibitor GSK3368715

Concha, N.O.

(2019) Cancer Cell 36: 100

Released	2019-07-10
Method	X-RAY DIFFRACTION 2.48 Å
Organisms	Homo sapiens
Macromolecule	Protein arginine N-methyltransferase 1 (protein)
Unique Ligands	DTT, GOL, KZS, SAH

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6P6G \| pdb_00006p6g	Download File View File

Co-crystal Structure of human SMYD3 with Isoxazole Amides Inhibitors

Elkins, P.A., Wang, L.

(2020) ACS Med Chem Lett 11: 133-140

Released	2020-01-15
Method	X-RAY DIFFRACTION 1.59 Å
Organisms	Homo sapiens
Macromolecule	Histone-lysine N-methyltransferase SMYD3 (protein)
Unique Ligands	GOL, LUP, MG, SAH, ZN

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6P6K \| pdb_00006p6k	Download File View File

Co-crystal Structure of human SMYD3 with Isoxazole Amides Inhibitors

Elkins, P.A., Wang, L.

(2020) ACS Med Chem Lett 11: 133-140

Released	2020-01-15
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Homo sapiens
Macromolecule	Histone-lysine N-methyltransferase SMYD3 (protein)
Unique Ligands	EDO, L0J, MG, SAM, ZN

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6P7Z \| pdb_00006p7z	Download File View File

Co-crystal Structure of human SMYD3 with Isoxazole Amides Inhibitors

Elkins, P.A., Bonnette, W.G.

(2020) ACS Med Chem Lett 11: 133-140

Released	2020-01-15
Method	X-RAY DIFFRACTION 1.19 Å
Organisms	Homo sapiens
Macromolecule	Histone-lysine N-methyltransferase SMYD3 (protein)
Unique Ligands	MG, O41, SAM, ZN

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6PAF \| pdb_00006paf	Download File View File

Co-crystal Structure of human SMYD3 with Isoxazole Amides Inhibitors

Elkins, P.A., Wang, L.

(2020) ACS Med Chem Lett 11: 133-140

Released	2020-01-15
Method	X-RAY DIFFRACTION 1.241 Å
Organisms	Homo sapiens
Macromolecule	Histone-lysine N-methyltransferase SMYD3 (protein)
Unique Ligands	GOL, MG, O6A, SAM, ZN

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6WN0 \| pdb_00006wn0	Download File View File

The structure of a CoA-dependent acyl-homoserine lactone synthase, RpaI, with the adduct of SAH and p-coumaroyl CoA

Dong, S.-H., Nair, S.K.

(2020) ACS Chem Biol 15: 1497-1504

Released	2020-05-13
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Rhodopseudomonas palustris
Macromolecule	4-coumaroyl-homoserine lactone synthase (protein)
Unique Ligands	COA, U4Y